AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene070731

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070731.t1 MTR_8g105890 100.000 104 0 0 1 104 5 108 4.28e-73 212
MS.gene070731.t1 MTR_8g105890 100.000 100 0 0 5 104 25 124 5.04e-70 205
MS.gene070731.t1 MTR_5g097030 93.137 102 7 0 3 104 58 159 7.40e-65 193
MS.gene070731.t1 MTR_8g105890 100.000 82 0 0 23 104 1 82 4.46e-56 168
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070731.t1 AT3G62840 94.231 104 6 0 1 104 5 108 1.47e-68 201
MS.gene070731.t1 AT2G47640 94.231 104 6 0 1 104 5 108 1.47e-68 201
MS.gene070731.t1 AT2G47640 94.231 104 6 0 1 104 5 108 1.47e-68 201
MS.gene070731.t1 AT3G62840 93.333 105 6 1 1 104 5 109 5.19e-67 197
MS.gene070731.t1 AT2G47640 93.333 105 6 1 1 104 5 109 5.19e-67 197
MS.gene070731.t1 AT2G47640 93.333 105 6 1 1 104 5 109 5.19e-67 197

Find 27 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGGAGATACTAGCTTATT+TGG 0.120204 2.1:+24226411 None:intergenic
ATTCTGTCATCATTGTTCTT+AGG 0.279548 2.1:-24226438 MS.gene070731:CDS
ATGGAGATACTAGCTTATTT+GGG 0.292207 2.1:+24226412 None:intergenic
AAAAGCTTCTAGGCCGTGTC+AGG 0.374760 2.1:-24226678 MS.gene070731:CDS
ATATGGTTCTTGAAAATGTC+AGG 0.398781 2.1:-24226636 MS.gene070731:CDS
TTCTTTCCTTTACCAGTCTT+AGG 0.400785 2.1:+24226517 None:intergenic
CTCAATTGTTACAGGCTGTC+GGG 0.428310 2.1:-24226893 MS.gene070731:intron
ATCAGCAAAATGTTCCTTCG+TGG 0.434985 2.1:-24226463 MS.gene070731:CDS
TAACTTACATCTTCTTCCAT+TGG 0.463268 2.1:+24227113 None:intergenic
ATGCATCAGGTGCCTAAGAC+TGG 0.498314 2.1:-24226529 MS.gene070731:intron
TCTCAATTGTTACAGGCTGT+CGG 0.508603 2.1:-24226894 MS.gene070731:intron
CAGGTGCCTAAGACTGGTAA+AGG 0.509368 2.1:-24226523 MS.gene070731:CDS
ATGAAACGATCCTTGTTGAC+TGG 0.518553 2.1:+24226484 None:intergenic
TTGAAAATGTCAGGGAAATG+TGG 0.530391 2.1:-24226627 MS.gene070731:CDS
GACTGGTAAAGGAAAGAAGA+AGG 0.552162 2.1:-24226512 MS.gene070731:CDS
TGTCGGGAAGAATGAGGAAG+AGG 0.555164 2.1:-24226877 MS.gene070731:CDS
CATGAGTACAGATAGTGGTC+CGG 0.577977 2.1:+24226845 None:intergenic
GTCTATCAAAAGCCCTGACA+CGG 0.582472 2.1:+24226665 None:intergenic
CTCATCATGAGTACAGATAG+TGG 0.583219 2.1:+24226840 None:intergenic
TGGAGATACTAGCTTATTTG+GGG 0.598626 2.1:+24226413 None:intergenic
GAAGGCTCAACCAGTCAACA+AGG 0.607021 2.1:-24226494 MS.gene070731:CDS
ACAGGCTGTCGGGAAGAATG+AGG 0.617342 2.1:-24226883 MS.gene070731:intron
TATGGTTCTTGAAAATGTCA+GGG 0.631126 2.1:-24226635 MS.gene070731:CDS
GAGGAAGAGGAATTCAACAC+CGG 0.662851 2.1:-24226864 MS.gene070731:CDS
AAAGCTTCTAGGCCGTGTCA+GGG 0.669612 2.1:-24226677 MS.gene070731:CDS
TGTCAGGGAAATGTGGACTG+AGG 0.680773 2.1:-24226620 MS.gene070731:intron
TGATGACAGAATCTCCACGA+AGG 0.746510 2.1:+24226449 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATATGGTTCTTGAAAATGTC+AGG - chr2.1:24226900-24226919 MS.gene070731:intron 30.0%
ATTCTGTCATCATTGTTCTT+AGG - chr2.1:24227098-24227117 MS.gene070731:intron 30.0%
CTGATATTCTCAATTGTTAC+AGG - chr2.1:24226635-24226654 MS.gene070731:CDS 30.0%
TATGGTTCTTGAAAATGTCA+GGG - chr2.1:24226901-24226920 MS.gene070731:intron 30.0%
TGATCTATTTAGTGCACATT+TGG - chr2.1:24226511-24226530 MS.gene070731:CDS 30.0%
! TTTAGCTTCTGTTAAAACCA+AGG + chr2.1:24226570-24226589 None:intergenic 30.0%
! TTTTGATAGACACTGCAATA+TGG - chr2.1:24226883-24226902 MS.gene070731:intron 30.0%
!! TTCAGAATGTTTTTGATGCT+TGG - chr2.1:24226790-24226809 MS.gene070731:intron 30.0%
ATTTGGATTGACCTTGAGTT+TGG - chr2.1:24226528-24226547 MS.gene070731:intron 35.0%
CGTAACAACAAAAAGCTTCT+AGG - chr2.1:24226848-24226867 MS.gene070731:CDS 35.0%
TAGTACTGTGTGTTCTTGAT+CGG - chr2.1:24226765-24226784 MS.gene070731:intron 35.0%
TCAGTTTGACTAAATCATGC+TGG + chr2.1:24226619-24226638 None:intergenic 35.0%
TCATAACAAATATGCGTACC+AGG + chr2.1:24226494-24226513 None:intergenic 35.0%
TTCTTTCCTTTACCAGTCTT+AGG + chr2.1:24227022-24227041 None:intergenic 35.0%
TTGAAAATGTCAGGGAAATG+TGG - chr2.1:24226909-24226928 MS.gene070731:intron 35.0%
! CAAGTTTTGCATTATGATCC+TGG - chr2.1:24226473-24226492 MS.gene070731:CDS 35.0%
!! GTTTTAACAGAAGCTAAACC+CGG - chr2.1:24226572-24226591 MS.gene070731:intron 35.0%
ATCAGCAAAATGTTCCTTCG+TGG - chr2.1:24227073-24227092 MS.gene070731:intron 40.0%
ATGAAACGATCCTTGTTGAC+TGG + chr2.1:24227055-24227074 None:intergenic 40.0%
ATGTTGTGCTTGTATGCATC+AGG - chr2.1:24226994-24227013 MS.gene070731:intron 40.0%
CTCATCATGAGTACAGATAG+TGG + chr2.1:24226699-24226718 None:intergenic 40.0%
CTGCGATATTGTTGAAACAC+CGG + chr2.1:24226594-24226613 None:intergenic 40.0%
GACTGGTAAAGGAAAGAAGA+AGG - chr2.1:24227024-24227043 MS.gene070731:intron 40.0%
GAGTGTGAAAAACAACACAC+AGG - chr2.1:24226716-24226735 MS.gene070731:intron 40.0%
TCTCAATTGTTACAGGCTGT+CGG - chr2.1:24226642-24226661 MS.gene070731:CDS 40.0%
TGCGATATTGTTGAAACACC+GGG + chr2.1:24226593-24226612 None:intergenic 40.0%
! GGTTTTACAAACACTTGTGC+AGG - chr2.1:24226811-24226830 MS.gene070731:intron 40.0%
CTCAATTGTTACAGGCTGTC+GGG - chr2.1:24226643-24226662 MS.gene070731:CDS 45.0%
GAGGAAGAGGAATTCAACAC+CGG - chr2.1:24226672-24226691 MS.gene070731:CDS 45.0%
GTCTATCAAAAGCCCTGACA+CGG + chr2.1:24226874-24226893 None:intergenic 45.0%
TGATGACAGAATCTCCACGA+AGG + chr2.1:24227090-24227109 None:intergenic 45.0%
TGGATTGACCTTGAGTTTGG+CGG - chr2.1:24226531-24226550 MS.gene070731:intron 45.0%
! CATGAGTACAGATAGTGGTC+CGG + chr2.1:24226694-24226713 None:intergenic 45.0%
AAAAGCTTCTAGGCCGTGTC+AGG - chr2.1:24226858-24226877 MS.gene070731:CDS 50.0%
AAAGCTTCTAGGCCGTGTCA+GGG - chr2.1:24226859-24226878 MS.gene070731:CDS 50.0%
ATGCATCAGGTGCCTAAGAC+TGG - chr2.1:24227007-24227026 MS.gene070731:intron 50.0%
CAGGTGCCTAAGACTGGTAA+AGG - chr2.1:24227013-24227032 MS.gene070731:intron 50.0%
CCAAGATTCCGCCAAACTCA+AGG + chr2.1:24226542-24226561 None:intergenic 50.0%
CCTTGAGTTTGGCGGAATCT+TGG - chr2.1:24226539-24226558 MS.gene070731:intron 50.0%
GAAGGCTCAACCAGTCAACA+AGG - chr2.1:24227042-24227061 MS.gene070731:intron 50.0%
TGTCGGGAAGAATGAGGAAG+AGG - chr2.1:24226659-24226678 MS.gene070731:CDS 50.0%
! TGTCAGGGAAATGTGGACTG+AGG - chr2.1:24226916-24226935 MS.gene070731:intron 50.0%
ACAGGCTGTCGGGAAGAATG+AGG - chr2.1:24226653-24226672 MS.gene070731:CDS 55.0%
!! GCGGAATCTTGGTGTCACCT+TGG - chr2.1:24226550-24226569 MS.gene070731:intron 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 24226426 24227132 24226426 ID=MS.gene070731
chr2.1 mRNA 24226426 24227132 24226426 ID=MS.gene070731.t1;Parent=MS.gene070731
chr2.1 exon 24227121 24227132 24227121 ID=MS.gene070731.t1.exon1;Parent=MS.gene070731.t1
chr2.1 CDS 24227121 24227132 24227121 ID=cds.MS.gene070731.t1;Parent=MS.gene070731.t1
chr2.1 exon 24226821 24226901 24226821 ID=MS.gene070731.t1.exon2;Parent=MS.gene070731.t1
chr2.1 CDS 24226821 24226901 24226821 ID=cds.MS.gene070731.t1;Parent=MS.gene070731.t1
chr2.1 exon 24226621 24226725 24226621 ID=MS.gene070731.t1.exon3;Parent=MS.gene070731.t1
chr2.1 CDS 24226621 24226725 24226621 ID=cds.MS.gene070731.t1;Parent=MS.gene070731.t1
chr2.1 exon 24226426 24226542 24226426 ID=MS.gene070731.t1.exon4;Parent=MS.gene070731.t1
chr2.1 CDS 24226426 24226542 24226426 ID=cds.MS.gene070731.t1;Parent=MS.gene070731.t1
Gene Sequence

>MS.gene070731

ATGGAAGAAGATGTAAGTTACTTATTCTTTAATTATAATTTTTATCACAAGTTTTGCATTATGATCCTGGTACGCATATTTGTTATGATCTATTTAGTGCACATTTGGATTGACCTTGAGTTTGGCGGAATCTTGGTGTCACCTTGGTTTTAACAGAAGCTAAACCCGGTGTTTCAACAATATCGCAGTGCCAGCATGATTTAGTCAAACTGATATTCTCAATTGTTACAGGCTGTCGGGAAGAATGAGGAAGAGGAATTCAACACCGGACCACTATCTGTACTCATGATGAGTGTGAAAAACAACACACAGGTATTTTTTTTTTTTATATGACACTAATAGTACTGTGTGTTCTTGATCGGTGTTCAGAATGTTTTTGATGCTTGGTTTTACAAACACTTGTGCAGGTACTGATCAATTGTCGTAACAACAAAAAGCTTCTAGGCCGTGTCAGGGCTTTTGATAGACACTGCAATATGGTTCTTGAAAATGTCAGGGAAATGTGGACTGAGGTATGCAATGTTTTGTTTACATAAATTTCTTCACTACTTAGCACATTATAAGCTAAATGTTGTGCTTGTATGCATCAGGTGCCTAAGACTGGTAAAGGAAAGAAGAAGGCTCAACCAGTCAACAAGGATCGTTTCATCAGCAAAATGTTCCTTCGTGGAGATTCTGTCATCATTGTTCTTAGGAACCCCAAATAA
Protein sequence

>MS.gene070731.t1

MEEDAVGKNEEEEFNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTEVPKTGKGKKKAQPVNKDRFISKMFLRGDSVIIVLRNPK